pre-miRNA Information | |
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pre-miRNA | mmu-mir-669m-1 |
Genomic Coordinates | chr2: 10512790 - 10512887 |
Synonyms | mmu-mir-669m-1, Mir669m-1 |
Description | Mus musculus miR-669m-1 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
pre-miRNA | mmu-mir-669m-2 |
Genomic Coordinates | chr2: 10513434 - 10513531 |
Synonyms | mmu-mir-669m-2, Mir669m-2 |
Description | Mus musculus miR-669m-2 stem-loop |
Comment | None |
RNA Secondary Structure | ![]() |
Mature miRNA Information | |
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Mature miRNA | mmu-miR-669m-5p |
Sequence | 25| UGUGUGCAUGUGCAUGUGUGUAU |47 |
Evidence | Experimental |
Experiments | Illumina |
Putative Targets |
Gene Information | |||||||||||||||||||||
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Gene Symbol | Fndc7 | ||||||||||||||||||||
Synonyms | E230011A21Rik | ||||||||||||||||||||
Description | fibronectin type III domain containing 7 | ||||||||||||||||||||
Transcript | NM_001165965 | ||||||||||||||||||||
Other Transcripts | NM_177091 | ||||||||||||||||||||
Expression | |||||||||||||||||||||
Putative miRNA Targets on Fndc7 | |||||||||||||||||||||
3'UTR of Fndc7 (miRNA target sites are highlighted) |
>Fndc7|NM_001165965|3'UTR 1 ATACAGATACTCCACAAGGGTCCCTGTGTTGTTAGTGAGCAGCCATGGAAACTCGCTATTAGAACACAATGTACCGTAGG 81 ATAGGCAAAGCTCCTTTGCGCTTTAAAGGAGGAACTCAGACTGTTTGGAGAGGACAAGGTCAAGTGTGTCGTTGGCTGCA 161 AAGAAGTTCAAGATGAGCTGTGGAGAGGAGGGGACTCCACAGAGGAAAGGCCCAGAAAGTCCCCTGGAAGGTTGCCAGAC 241 TGAGTCAGCACACTGTCACAGCCTGGATGCATAAAAGCCACGCTTAGCAGAAACTTGTTTGGGGGCTTCATATCCAGACA 321 CACCACAGAATGTCGCCTATCCCAAAGCCACGTAGCCCAGGCTGGCCTTGAAGTCTCAGTCCTTCTGCCTCAACCTCCCA 401 ACGTGTCGGGTTACGGGCATCCACCATTATGCTCCATCACAAACTTTAATACTTCCTGGCCAGGGGTCTCTCAAAAGCTT 481 CCCTACAGCATCCTCTCCGCAGAAGTATGGAATTGCACACCCTCAGTCAAGCCATCCTCCAGAGGACAGCATTCGCCCCC 561 AAGACAGGCCTTTGTTGAGGCCTTTAAGCTTGAGTCTAGAGCAGCTGCTGCTAGGGCAACTGTGTGGTAACAAACGCCTT 641 CGGCCCAGGTTCCCGGGGAAGCTGAGCTGCCTGCAGACTTCACTGAGTCAGAGAGCGCCATGTGAGCAGACATCTGCCAG 721 AGCCTTTGGGAAAGCAGAAGCGTAGGTCTGTGGCTGGAAAGACTGTCATCACGCTCTCGGAGTGAGCAAAGACGTCAGGC 801 GGAGCAGCAGCCAAGGGCAAAGAGTCTCAGACTGTGACAGGCTGACATGCACACACAGCCTTTCAGGGTTCATGGATCTC 881 GCAGTCTGTTCTCTATGCTCTGCGCACATTGTAATGGCTTCCTTCCGCGATCCGAGAGAAGAAAACGGTGGATATATAAC 961 ATCAATCTGTTGTACCTAGAACAAATGTTTGTCTGTCTGATGCCAGAAAAGTAATTTTAAAATAGCATGAGTATGATTTG 1041 TGTCACGAGTTCTCAAAGGCATGGCTGTAGTGTGTGAAAGGGTGGCTCAGTGGTTAAGAGAACAGGCTGTTCTTGCAGAA 1121 GACTCGAGTTCCATTCCGAGCCCTCTCATGGCAGCTTATAAACATCTGTAACACTGGTTTGGGGTGAGGGTGGTGGCGGT 1201 GGGGGTGGGCCATACCCTCTGTCTTCTGGCCTCTGAGAGCATCAGGCACCAAATGGTGCACACGCAGGAAACTTAGACAC 1281 GAGGCCAGCAAGGAAGAGAGCGCAAACTTCCTCTCCTGCATCTTCTTTCCATGTATGAGGGCACATGCCGGTAATCTCAA 1361 CCCTCAGGAGTCTGAGGCAGGAGGATCATGAATTCAAGGCCAGCTTGGCACACATCCTGAAATGTCTCAACAAACAAATC 1441 AGGGATGCAAAAACGTTTCGCTGACAAAGAGATTTTATTACTATCAAGTATCCACTTTTAAAAAATTTATGTTTTATTTT 1521 ACATAGATGAATGTGCTGCCAGAATGTATGTCTGTGCACCACATGGGTGCCTGTGGAGACCGGAAGAGGACATGAAATCC 1601 CTTGGGATGGGAGTTACAGGTGGTTATGAGCCGCCTTATAGGCACTGGGAACTGAGCTCAGGGTCTCTGCAAGAGCAGCA 1681 GGTGCTCTTAATCAATGAGCCATCTCTCCAGCCCCTGTTTATTTTTTATGGTTTCATACACATATACTTTGCATTCTGAA 1761 CACTCACCCCTCCACACACACACACACATCTCTACTACCTCTGCCCGATCCCCCCCACCCTCCACCAATCTCGCTTGTGT 1841 TCCTGGATGTTTCGTTTAGTGTCCCAGAAAGATTTGCCAGGACCATCTGTGGGGTGTGATGGGCTCAGCAGAGGACACCC 1921 AAGTAAAGACCACATCCCTCCTCTCAGAGGATCGACTGATAGCCCATGCTTCAGAGGTAAAGGGTGGGGTCTCATAAGCC 2001 CCTGGATAAAGAGATCTTTCCCAGAGACAAGCCAGTTCTAAAAGTGGAGTTAAATGTCTCAAGTACACAAATGGAAGGGG 2081 GTTGAGTTTTGTTCACTTAAAAAAATTTTTTTTTGTTTTGTTTTTGCCAGTCAGAATAGTGCACACCTTTAATGCTAGCA 2161 CTCAGGAGGCAAAGATAGGTGGATGTCTGAGTTTAAGGCTAGCCTGGTCTACCTAGGGAACTCCAGGCCCGAAAAAGCTA 2241 GCTAGTGAGACCCTGTCTCAAAAAAAAAAAATGTTTTTAGCTGGGTACAGAGATGTATACCTTTAATCCCAGCTCTTAGG 2321 AGGCAGAGTCAGGTGGATCTCCATGAGTTCGAGGCCAGCCTGGACTAGACAGTGAGTTACAGGACAGCCAGGGTTATAGA 2401 GAGACCTGTCTCAAAAACAAACAACAACCAATCTAGCCAGTAGTGCCGCAGACCTTTGATCCCAGCAATCAGGAGGCAGA 2481 GGCAGGCAGATCTCTGAAATCGAGGCTAGTCTAGTCTACAAAGCAAATTCTAGGACAAACAGGGCTATATAAAGAAACCT 2561 TGTCTTAAAAAAAATAAAATAAAATAAAAATAGAACAGAACAAAAC Target sites
Provided by authors
Predicted by miRanda
DRVs
SNPs
DRVs & SNPs
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miRNA-target interactions (Predicted by miRanda) |
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Experimental Support 1 for Functional miRNA-Target Interaction | |
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miRNA:Target | ---- |
Validation Method |
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Conditions | CD4+ T cells (C57BL/6) |
Disease | MIMAT0017346 |
Location of target site | 3'UTR |
Tools used in this research | TargetScan , miRTarCLIP , Piranha |
Original Description (Extracted from the article) |
...
"HITS-CLIP data was present in GSM1013589. RNA binding protein: AGO2. Condition:CD4+ T cells
... - Loeb GB; Khan AA; Canner D; Hiatt JB; et al., 2012, Molecular cell. |
Article |
- Loeb GB; Khan AA; Canner D; Hiatt JB; et al. - Molecular cell, 2012
MicroRNAs (miRNAs) are essential components of gene regulation, but identification of miRNA targets remains a major challenge. Most target prediction and discovery relies on perfect complementarity of the miRNA seed to the 3' untranslated region (UTR). However, it is unclear to what extent miRNAs target sites without seed matches. Here, we performed a transcriptome-wide identification of the endogenous targets of a single miRNA-miR-155-in a genetically controlled manner. We found that approximately 40% of miR-155-dependent Argonaute binding occurs at sites without perfect seed matches. The majority of these noncanonical sites feature extensive complementarity to the miRNA seed with one mismatch. These noncanonical sites confer regulation of gene expression, albeit less potently than canonical sites. Thus, noncanonical miRNA binding sites are widespread, often contain seed-like motifs, and can regulate gene expression, generating a continuum of targeting and regulation.
LinkOut: [PMID: 23142080]
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CLIP-seq Support 1 for dataset GSM1013589 | |
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Method / RBP | HITS-CLIP / AGO2 |
Cell line / Condition | CD4+ T cells (C57BL/6) / CD4+ T cells, WT, biological rep3 |
Location of target site | NM_001165965 | 3UTR | ACACCUUUAAUGCUA |
Tools used in this analysis | TargetScan, miRTarCLIP, and Piranha |
Article / Accession Series | PMID: 23142080 / GSE41285 |
CLIP-seq Viewer | Link |
87 mmu-miR-669m-5p Target Genes:
Functional analysis:
ID![]() |
Target | Description | Validation methods |
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Strong evidence | Less strong evidence | |||||||||||
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MIRT577337 | Zfp157 | zinc finger protein 157 | ![]() |
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2 | 2 | ||||||
MIRT577486 | Tns4 | tensin 4 | ![]() |
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2 | 6 | ||||||
MIRT578069 | Oxsm | 3-oxoacyl-ACP synthase, mitochondrial | ![]() |
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2 | 2 | ||||||
MIRT578341 | Ltf | lactotransferrin | ![]() |
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2 | 2 | ||||||
MIRT578746 | Gm4841 | predicted gene 4841 | ![]() |
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2 | 4 | ||||||
MIRT578823 | Fermt1 | fermitin family member 1 | ![]() |
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2 | 2 | ||||||
MIRT579125 | Chrnd | cholinergic receptor, nicotinic, delta polypeptide | ![]() |
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2 | 2 | ||||||
MIRT579138 | Chrna1 | cholinergic receptor, nicotinic, alpha polypeptide 1 (muscle) | ![]() |
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2 | 2 | ||||||
MIRT579308 | BC021785 | major facilitator superfamily domain containing 4B5 | ![]() |
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2 | 4 | ||||||
MIRT579418 | Agtrap | angiotensin II, type I receptor-associated protein | ![]() |
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2 | 2 | ||||||
MIRT579730 | Zfp92 | zinc finger protein 92 | ![]() |
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2 | 4 | ||||||
MIRT579980 | Wrn | Werner syndrome RecQ like helicase | ![]() |
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2 | 4 | ||||||
MIRT581036 | Sim1 | single-minded homolog 1 (Drosophila) | ![]() |
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2 | 4 | ||||||
MIRT581534 | Pten | phosphatase and tensin homolog | ![]() |
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2 | 2 | ||||||
MIRT582315 | Nab1 | Ngfi-A binding protein 1 | ![]() |
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2 | 4 | ||||||
MIRT582845 | Itga9 | integrin alpha 9 | ![]() |
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2 | 4 | ||||||
MIRT582975 | Igf2 | insulin-like growth factor 2 | ![]() |
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2 | 4 | ||||||
MIRT583471 | Foxk1 | forkhead box K1 | ![]() |
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2 | 4 | ||||||
MIRT584664 | B4galt6 | UDP-Gal:betaGlcNAc beta 1,4-galactosyltransferase, polypeptide 6 | ![]() |
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2 | 4 | ||||||
MIRT585223 | Zfp488 | zinc finger protein 488 | ![]() |
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2 | 4 | ||||||
MIRT585300 | Zfp26 | zinc finger protein 26 | ![]() |
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2 | 2 | ||||||
MIRT585313 | Zfp248 | zinc finger protein 248 | ![]() |
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2 | 4 | ||||||
MIRT585836 | Slc6a17 | solute carrier family 6 (neurotransmitter transporter), member 17 | ![]() |
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2 | 4 | ||||||
MIRT586076 | Rhobtb1 | Rho-related BTB domain containing 1 | ![]() |
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2 | 2 | ||||||
MIRT586328 | Pgm5 | phosphoglucomutase 5 | ![]() |
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2 | 4 | ||||||
MIRT587380 | Dzip3 | DAZ interacting protein 3, zinc finger | ![]() |
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2 | 2 | ||||||
MIRT587614 | Cml2 | N-acetyltransferase 8 (GCN5-related) family member 2 | ![]() |
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2 | 2 | ||||||
MIRT587630 | Clec7a | C-type lectin domain family 7, member a | ![]() |
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2 | 8 | ||||||
MIRT587724 | Cd28 | CD28 antigen | ![]() |
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2 | 2 | ||||||
MIRT587756 | Cd200r1 | CD200 receptor 1 | ![]() |
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2 | 2 | ||||||
MIRT588014 | Akap7 | A kinase (PRKA) anchor protein 7 | ![]() |
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2 | 2 | ||||||
MIRT588297 | 1700019G17Rik | N-acetyltransferase 8 (GCN5-related) family member 4 | ![]() |
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2 | 2 | ||||||
MIRT588558 | Uhrf1bp1l | UHRF1 (ICBP90) binding protein 1-like | ![]() |
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2 | 2 | ||||||
MIRT588688 | Tet2 | tet methylcytosine dioxygenase 2 | ![]() |
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2 | 2 | ||||||
MIRT588895 | Slc1a2 | solute carrier family 1 (glial high affinity glutamate transporter), member 2 | ![]() |
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2 | 4 | ||||||
MIRT589020 | Rnf11 | ring finger protein 11 | ![]() |
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2 | 2 | ||||||
MIRT589098 | Rasal2 | RAS protein activator like 2 | ![]() |
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2 | 4 | ||||||
MIRT590108 | Etv3 | ets variant 3 | ![]() |
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2 | 2 | ||||||
MIRT590173 | Elovl6 | ELOVL family member 6, elongation of long chain fatty acids (yeast) | ![]() |
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2 | 4 | ||||||
MIRT590925 | Tacr2 | tachykinin receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT591064 | Ptpre | protein tyrosine phosphatase, receptor type, E | ![]() |
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2 | 4 | ||||||
MIRT591145 | Nsun3 | NOL1/NOP2/Sun domain family member 3 | ![]() |
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2 | 2 | ||||||
MIRT591206 | Mdm2 | transformed mouse 3T3 cell double minute 2 | ![]() |
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2 | 2 | ||||||
MIRT591428 | Car10 | carbonic anhydrase 10 | ![]() |
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2 | 4 | ||||||
MIRT591504 | Acot2 | acyl-CoA thioesterase 2 | ![]() |
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2 | 4 | ||||||
MIRT591558 | Zfp449 | zinc finger protein 449 | ![]() |
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2 | 2 | ||||||
MIRT591634 | Ubtf | upstream binding transcription factor, RNA polymerase I | ![]() |
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2 | 4 | ||||||
MIRT591949 | Ceacam1 | carcinoembryonic antigen-related cell adhesion molecule 1 | ![]() |
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2 | 2 | ||||||
MIRT591975 | Ap1ar | adaptor-related protein complex 1 associated regulatory protein | ![]() |
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2 | 2 | ||||||
MIRT592039 | Tnfrsf13c | tumor necrosis factor receptor superfamily, member 13c | ![]() |
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2 | 2 | ||||||
MIRT592090 | Smo | smoothened, frizzled class receptor | ![]() |
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2 | 2 | ||||||
MIRT592111 | Slc25a12 | solute carrier family 25 (mitochondrial carrier, Aralar), member 12 | ![]() |
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2 | 2 | ||||||
MIRT592172 | Oxtr | oxytocin receptor | ![]() |
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2 | 2 | ||||||
MIRT592215 | Map3k7 | mitogen-activated protein kinase kinase kinase 7 | ![]() |
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2 | 2 | ||||||
MIRT592225 | Magee2 | melanoma antigen, family E, 2 | ![]() |
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2 | 6 | ||||||
MIRT592248 | Lcp2 | lymphocyte cytosolic protein 2 | ![]() |
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2 | 4 | ||||||
MIRT592265 | Kcnj16 | potassium inwardly-rectifying channel, subfamily J, member 16 | ![]() |
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2 | 2 | ||||||
MIRT592389 | Trp53i11 | transformation related protein 53 inducible protein 11 | ![]() |
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2 | 6 | ||||||
MIRT592424 | Stxbp5l | syntaxin binding protein 5-like | ![]() |
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2 | 2 | ||||||
MIRT592444 | Snx12 | sorting nexin 12 | ![]() |
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2 | 2 | ||||||
MIRT592518 | Npr3 | natriuretic peptide receptor 3 | ![]() |
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2 | 2 | ||||||
MIRT592624 | Mbnl3 | muscleblind like splicing factor 3 | ![]() |
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2 | 4 | ||||||
MIRT592705 | Gfra2 | glial cell line derived neurotrophic factor family receptor alpha 2 | ![]() |
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2 | 2 | ||||||
MIRT592745 | Epas1 | endothelial PAS domain protein 1 | ![]() |
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2 | 2 | ||||||
MIRT592762 | Dmd | dystrophin, muscular dystrophy | ![]() |
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2 | 4 | ||||||
MIRT592846 | Akap2 | A kinase (PRKA) anchor protein 2 | ![]() |
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2 | 2 | ||||||
MIRT592988 | Cacna2d2 | calcium channel, voltage-dependent, alpha 2/delta subunit 2 | ![]() |
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2 | 2 | ||||||
MIRT593001 | Bend4 | BEN domain containing 4 | ![]() |
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2 | 2 | ||||||
MIRT593230 | Fndc3a | fibronectin type III domain containing 3A | ![]() |
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2 | 2 | ||||||
MIRT593419 | Neurod2 | neurogenic differentiation 2 | ![]() |
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2 | 4 | ||||||
MIRT593451 | Rab11fip1 | RAB11 family interacting protein 1 (class I) | ![]() |
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2 | 2 | ||||||
MIRT593485 | Havcr2 | hepatitis A virus cellular receptor 2 | ![]() |
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2 | 2 | ||||||
MIRT593515 | Csf2ra | colony stimulating factor 2 receptor, alpha, low-affinity (granulocyte-macrophage) | ![]() |
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2 | 2 | ||||||
MIRT594036 | 2810006K23Rik | RIKEN cDNA 2810006K23 gene | ![]() |
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2 | 2 | ||||||
MIRT594128 | Fam104a | family with sequence similarity 104, member A | ![]() |
1 | 1 | |||||||
MIRT595669 | Rxrb | retinoid X receptor beta | ![]() |
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2 | 2 | ||||||
MIRT595702 | Fndc7 | fibronectin type III domain containing 7 | ![]() |
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2 | 2 | ||||||
MIRT596266 | Bnc2 | basonuclin 2 | ![]() |
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2 | 2 | ||||||
MIRT596280 | Slc6a8 | solute carrier family 6 (neurotransmitter transporter, creatine), member 8 | ![]() |
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2 | 2 | ||||||
MIRT598760 | Gpr68 | G protein-coupled receptor 68 | ![]() |
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2 | 2 | ||||||
MIRT601113 | Btrc | beta-transducin repeat containing protein | ![]() |
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2 | 2 | ||||||
MIRT601203 | Arhgef9 | CDC42 guanine nucleotide exchange factor (GEF) 9 | ![]() |
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2 | 2 | ||||||
MIRT603153 | Ubxn8 | UBX domain protein 8 | ![]() |
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2 | 2 | ||||||
MIRT603194 | Trim65 | tripartite motif-containing 65 | ![]() |
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2 | 2 | ||||||
MIRT604580 | Trim71 | tripartite motif-containing 71 | ![]() |
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2 | 2 | ||||||
MIRT605450 | St18 | suppression of tumorigenicity 18 | ![]() |
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2 | 2 | ||||||
MIRT605589 | Ncam1 | neural cell adhesion molecule 1 | ![]() |
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2 | 2 |